Non-Coding RNA Search

Ss1.1-rpigcb_0959.5

Sequence:


               
               CGTGCAGCTGGGGTCCCAAGCAGCTCCGCCCAGGGCTTGGTCATGTCAGCACCCTGTAGG
GGGACAGTCCCCTCTAAGGATGGTCATAAGGGATGTGGTAGCAAAGGTGGCTTCCCCAGG
GCTGCTCAGGGAGGGGGCATAATGGGCGGGGCACCCATGGGCTCAGGTTCTGCGAGAGGT
CCGGAGGGGGGGCACGTGGAGAGAAGGGAGACTCGCCTCTGGACACCATGGGCCACTCCA
GGACGGGACATCGCCCCCTTCTGTCTGTCAAGGGGGACTCAGCAGTCCTCTTCCCTTCTC
GCCAGAACCAGAATGCAATTATGACCGTCTGCTCCAGCCCCGCCCTGATCCCTGGCCCTG
CCAGCTGCTTGGGACCCCAGCCGACCACCAGCCCCCACCCCACCCACCAAGCCCTCTCCC
ATCCCTCTCGTCTGCCGTGTCTGCGTGCACCCCCTCCTCTCCATCCCACCCCCGTGGGCA
GACCCAGCCTCCCCTGGTTCCCTAGACATTCCAGAACACCCCACACCATTGGCACAAGGG
GTGGGGCCCCCCAGAAGGAGCCAAGGACCAAGGCTGGAGTCAGTGGGGAGGAGGGGGTGA
GACAGAGAGAACGGAATATGCTTTACTTCTCAAGCAAGAATTTCGAGTGTTTGAGGCCAT
GAGGACGGGCGCCCGGGGCCAAGAGACCCCTGTTCCTCTCGCCGCCACTGCCCACCCCTT
TCCTGATAATCGTGGCATGCATCCTTTCCTCCCCCCTCCCCCCAGCAGGCCAGCACTGCA
GGAGCTCAGGTGCTGGTGGTGTGGCCGGAGGGGAGGAGAGACCCAAGGGGGGGCCGTGGC
CGTGAATGTTGATGACACTTGTTTTCCCTGGTCTGTGCTGTTGCAGTCTGTCGTCACCAG
CCTTGTTTTTAGTGTGTATATATGTCGCCCCCGTGATGCATATATACACAGGTATTAAAT
ATATCGCTCTATATAATATTATATATGTGTGTGGTATCCAAGGAGTCA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CGTGCAGCTGGGGTCCCAAGCAGCTCCGCCCAGGGCTTGGTCATGTCAGCACCCTGTAGG
GGGACAGTCCCCTCTAAGGATGGTCATAAGGGATGTGGTAGCAAAGGTGGCTTCCCCAGG
GCTGCTCAGGGAGGGGGCATAATGGGCGGGGCACCCATGGGCTCAGGTTCTGCGAGAGGT
CCGGAGGGGGGGCACGTGGAGAGAAGGGAGACTCGCCTCTGGACACCATGGGCCACTCCA
GGACGGGACATCGCCCCCTTCTGTCTGTCAAGGGGGACTCAGCAGTCCTCTTCCCTTCTC
GCCAGAACCAGAATGCAATTATGACCGTCTGCTCCAGCCCCGCCCTGATCCCTGGCCCTG
CCAGCTGCTTGGGACCCCAGCCGACCACCAGCCCCCACCCCACCCACCAAGCCCTCTCCC
ATCCCTCTCGTCTGCCGTGTCTGCGTGCACCCCCTCCTCTCCATCCCACCCCCGTGGGCA
GACCCAGCCTCCCCTGGTTCCCTAGACATTCCAGAACACCCCACACCATTGGCACAAGGG
GTGGGGCCCCCCAGAAGGAGCCAAGGACCAAGGCTGGAGTCAGTGGGGAGGAGGGGGTGA
GACAGAGAGAACGGAATATGCTTTACTTCTCAAGCAAGAATTTCGAGTGTTTGAGGCCAT
GAGGACGGGCGCCCGGGGCCAAGAGACCCCTGTTCCTCTCGCCGCCACTGCCCACCCCTT
TCCTGATAATCGTGGCATGCATCCTTTCCTCCCCCCTCCCCCCAGCAGGCCAGCACTGCA
GGAGCTCAGGTGCTGGTGGTGTGGCCGGAGGGGAGGAGAGACCCAAGGGGGGGCCGTGGC
CGTGAATGTTGATGACACTTGTTTTCCCTGGTCTGTGCTGTTGCAGTCTGTCGTCACCAG
CCTTGTTTTTAGTGTGTATATATGTCGCCCCCGTGATGCATATATACACAGGTATTAAAT
ATATCGCTCTATATAATATTATATATGTGTGTGGTATCCAAGGAGTCA

Predicted RNA structure(s): 4 entry(ies)

More info

Predicted RNA structure(s): 4 entry(ies)

Help | Less info


               
               221-393, - strand, RNAz p=0.968493
               

               
               449-624, - strand, RNAz p=0.989269
               

               
               725-1008, - strand, RNAz p=0.998513
               

               
               889-1008, - strand, RNAz p=0.98493

Predicted RNA structure(s): 4 entry(ies)

Help | Less info

PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               221-393, - strand, RNAz p=0.968493
               

               
               449-624, - strand, RNAz p=0.989269
               

               
               725-1008, - strand, RNAz p=0.998513
               

               
               889-1008, - strand, RNAz p=0.98493

Predicted microRNA(s): 2 entry(ies)

More info

Predicted microRNA(s): 2 entry(ies)

Help | Less info


               
               775-902, + strand, RNAmicro p=0.999984
               

               
               182-328, - strand, RNAmicro p=0.985679

Predicted microRNA(s): 2 entry(ies)

Help | Less info

PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               775-902, + strand, RNAmicro p=0.999984
               

               
               182-328, - strand, RNAmicro p=0.985679

Similar Transcript(s): 12 entry(ies)

More info

Similar Transcript(s): 12 entry(ies)

Help | Less info


               
               449-618, 960696 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK772183.1|), 
blast E-value=0, identity=91.91% 
               

               
               449-618, 4120978 BARC 8BOV Bos taurus cDNA clone 8BOV_33E18 5', mRNA 
(gb|CN786913.1|), blast E-value=0, identity=91.91% 
               

               
               449-618, LB02628.CR_G22 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV883770.1|), 
blast E-value=0, identity=91.91% 
               

               
               449-618, LB02915.CR_O08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV919395.1|), 
blast E-value=0, identity=91.91% 
               

               
               449-618, LB02957.CR_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357052.1|), 
blast E-value=0, identity=91.91% 
               

               
               449-618, LB030108.CR_I05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE376397.1|), 
blast E-value=0, identity=91.91% 
               

               
               834-938, MR2-NN1112-030800-007-d06 NN1112 Homo sapiens cDNA, mRNA sequence 
(gb|BE703814.1|), blast E-value=0, identity=100% 
               

               
               834-938, 4120978 BARC 8BOV Bos taurus cDNA clone 8BOV_33E18 5', mRNA 
(gb|CN786913.1|), blast E-value=0, identity=98.1% 
               

               
               834-938, UMC-bend_0B01-026-c03 Day 16 Uterus from a pregnant animal bend Bos 
(gb|CO728399.1|), blast E-value=0, identity=98.1% 
               

               
               834-938, LB01731.CR.1_L04 GC_BGC-17 Bos taurus cDNA clone IMAGE 
(gb|EE334998.1|), blast E-value=0, identity=98.1% 
               

               
               834-938, LB02957.CR_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357052.1|), 
blast E-value=0, identity=98.1% 
               

               
               834-938, LB030108.CR_I05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE376397.1|), 
blast E-value=0, identity=98.1%

Similar Transcript(s): 12 entry(ies)

Help | Less info

PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               449-618, 960696 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK772183.1|), 
blast E-value=0, identity=91.91% 
               

               
               449-618, 4120978 BARC 8BOV Bos taurus cDNA clone 8BOV_33E18 5', mRNA 
(gb|CN786913.1|), blast E-value=0, identity=91.91% 
               

               
               449-618, LB02628.CR_G22 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV883770.1|), 
blast E-value=0, identity=91.91% 
               

               
               449-618, LB02915.CR_O08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV919395.1|), 
blast E-value=0, identity=91.91% 
               

               
               449-618, LB02957.CR_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357052.1|), 
blast E-value=0, identity=91.91% 
               

               
               449-618, LB030108.CR_I05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE376397.1|), 
blast E-value=0, identity=91.91% 
               

               
               834-938, MR2-NN1112-030800-007-d06 NN1112 Homo sapiens cDNA, mRNA sequence 
(gb|BE703814.1|), blast E-value=0, identity=100% 
               

               
               834-938, 4120978 BARC 8BOV Bos taurus cDNA clone 8BOV_33E18 5', mRNA 
(gb|CN786913.1|), blast E-value=0, identity=98.1% 
               

               
               834-938, UMC-bend_0B01-026-c03 Day 16 Uterus from a pregnant animal bend Bos 
(gb|CO728399.1|), blast E-value=0, identity=98.1% 
               

               
               834-938, LB01731.CR.1_L04 GC_BGC-17 Bos taurus cDNA clone IMAGE 
(gb|EE334998.1|), blast E-value=0, identity=98.1% 
               

               
               834-938, LB02957.CR_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357052.1|), 
blast E-value=0, identity=98.1% 
               

               
               834-938, LB030108.CR_I05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE376397.1|), 
blast E-value=0, identity=98.1%

Aligned organism(s): 11 entry(ies)

More info

Aligned organism(s): 11 entry(ies)

Help | Less info


               
               170-1008, gnl|bosTau2|chr5 (71196878-71197732)
               

               
               170-1008, gnl|canFam2|chr10 (26947304-26946734)
               

               
               170-1008, gnl|hg17|chr22 (40079001-40079566)
               

               
               170-1008, gnl|Hg17|chr22 (40079013-40079855)
               

               
               170-1008, gnl|loxAfr1|scaffold_34087 (1531-2053)
               

               
               170-1008, gnl|mm7|chr15 (81879121-81879670)
               

               
               170-1008, gnl|Mm7|chr15 (81879135-81879949)
               

               
               170-1008, gnl|oryCun1|scaffold_194022 (121645-122194)
               

               
               170-1008, gnl|panTro1|chr23 (40346819-40347385)
               

               
               170-1008, gnl|rheMac2|chr10 (85316772-85317330)
               

               
               170-1008, gnl|rn3|chr7 (120177488-120178002)

Aligned organism(s): 11 entry(ies)

Help | Less info

PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               170-1008, gnl|bosTau2|chr5 (71196878-71197732)
               

               
               170-1008, gnl|canFam2|chr10 (26947304-26946734)
               

               
               170-1008, gnl|hg17|chr22 (40079001-40079566)
               

               
               170-1008, gnl|Hg17|chr22 (40079013-40079855)
               

               
               170-1008, gnl|loxAfr1|scaffold_34087 (1531-2053)
               

               
               170-1008, gnl|mm7|chr15 (81879121-81879670)
               

               
               170-1008, gnl|Mm7|chr15 (81879135-81879949)
               

               
               170-1008, gnl|oryCun1|scaffold_194022 (121645-122194)
               

               
               170-1008, gnl|panTro1|chr23 (40346819-40347385)
               

               
               170-1008, gnl|rheMac2|chr10 (85316772-85317330)
               

               
               170-1008, gnl|rn3|chr7 (120177488-120178002)

Expressed library(ies): 2 entry(ies)

More info

Expressed library(ies): 2 entry(ies)

Help | Less info


               
               eep (0.122564)
               

               
               cty (0.10408)

Expressed library(ies): 2 entry(ies)

Help | Less info

Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               eep (0.122564)
               

               
               cty (0.10408)

	221-393, - strand, RNAz p=0.968493
	449-624, - strand, RNAz p=0.989269
	725-1008, - strand, RNAz p=0.998513
	889-1008, - strand, RNAz p=0.98493

	775-902, + strand, RNAmicro p=0.999984
	182-328, - strand, RNAmicro p=0.985679

	449-618, 960696 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK772183.1\|), blast E-value=0, identity=91.91%
	449-618, 4120978 BARC 8BOV Bos taurus cDNA clone 8BOV_33E18 5', mRNA (gb\|CN786913.1\|), blast E-value=0, identity=91.91%
	449-618, LB02628.CR_G22 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV883770.1\|), blast E-value=0, identity=91.91%
	449-618, LB02915.CR_O08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV919395.1\|), blast E-value=0, identity=91.91%
	449-618, LB02957.CR_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE357052.1\|), blast E-value=0, identity=91.91%
	449-618, LB030108.CR_I05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE376397.1\|), blast E-value=0, identity=91.91%
	834-938, MR2-NN1112-030800-007-d06 NN1112 Homo sapiens cDNA, mRNA sequence (gb\|BE703814.1\|), blast E-value=0, identity=100%
	834-938, 4120978 BARC 8BOV Bos taurus cDNA clone 8BOV_33E18 5', mRNA (gb\|CN786913.1\|), blast E-value=0, identity=98.1%
	834-938, UMC-bend_0B01-026-c03 Day 16 Uterus from a pregnant animal bend Bos (gb\|CO728399.1\|), blast E-value=0, identity=98.1%
	834-938, LB01731.CR.1_L04 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|EE334998.1\|), blast E-value=0, identity=98.1%
	834-938, LB02957.CR_P04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE357052.1\|), blast E-value=0, identity=98.1%
	834-938, LB030108.CR_I05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE376397.1\|), blast E-value=0, identity=98.1%

	170-1008, gnl\|bosTau2\|chr5 (71196878-71197732)
	170-1008, gnl\|canFam2\|chr10 (26947304-26946734)
	170-1008, gnl\|hg17\|chr22 (40079001-40079566)
	170-1008, gnl\|Hg17\|chr22 (40079013-40079855)
	170-1008, gnl\|loxAfr1\|scaffold_34087 (1531-2053)
	170-1008, gnl\|mm7\|chr15 (81879121-81879670)
	170-1008, gnl\|Mm7\|chr15 (81879135-81879949)
	170-1008, gnl\|oryCun1\|scaffold_194022 (121645-122194)
	170-1008, gnl\|panTro1\|chr23 (40346819-40347385)
	170-1008, gnl\|rheMac2\|chr10 (85316772-85317330)
	170-1008, gnl\|rn3\|chr7 (120177488-120178002)